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Conserved domains on  [gi|79340059|ref|NP_172442|]
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Homeodomain-like superfamily protein [Arabidopsis thaliana]

Protein Classification

telomere repeat binding factor family protein( domain architecture ID 10184738)

telomere repeat binding factor (TRF) family protein binds directly to the telomeric double-stranded TTAGGG repeat through its SANT (SWI3, ADA2, N-CoR and TFIIIB)/Myb-like DNA-binding domain, and negatively regulates telomere length

CATH:  1.20.58.1880
Gene Ontology:  GO:0003677|GO:0006355|GO:0003700
PubMed:  8882580|12757977|15040448|16877755
SCOP:  4000317

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
SANT_TRF cd11660
Telomere repeat binding factor-like DNA-binding domains of the SANT/myb-like family; Human ...
 201-249 4.64e-14

Telomere repeat binding factor-like DNA-binding domains of the SANT/myb-like family; Human telomere repeat binding factors, TRF1 and TRF2, function as part of the 6 component shelterin complex. TRF2 binds DNA and recruits RAP1 (via binding to the RAP1 protein c-terminal (RCT)) and TIN2 in the protection of telomeres from DNA repair machinery. Metazoan shelterin consists of 3 DNA binding proteins (TRF2, TRF1, and POT1) and 3 recruited proteins that bind to one or more of these DNA-binding proteins (RAP1, TIN2, TPP1). Schizosaccharomyces pombe TAZ1 is an orthlog and binds RAP1. Human TRF1 and TRF2 bind double-stranded DNA. hTRF2 consists of a basic N-terminus, a TRF homology domain, the RAP1 binding motif (RBM), the TIN2 binding motif (TBM) and a myb-like DNA binding domain, SANT, named after 'SWI3, ADA2, N-CoR and TFIIIB', several factors that share this domain. Tandem copies of the domain bind telomeric DNA tandem repeats as part of the capping complex. The single myb-like domain of TRF-type proteins is similar to the tandem myb_like domains found in yeast RAP1.


:

Pssm-ID: 212558 [Multi-domain]  Cd Length: 50  Bit Score: 66.44  E-value: 4.64e-14
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|
gi 79340059 201 KRWSAEEDEELFAAVKRCGEGNWAHIVKGDFR-GERTASQLSQRWALIRK 249
Cdd:cd11660   1 RKWTDEEDEALVEGVEKYGVGNWAKILKDYFFvNNRTSVDLKDKWRNLKK 50
 
Name Accession Description Interval E-value
SANT_TRF cd11660
Telomere repeat binding factor-like DNA-binding domains of the SANT/myb-like family; Human ...
 201-249 4.64e-14

Telomere repeat binding factor-like DNA-binding domains of the SANT/myb-like family; Human telomere repeat binding factors, TRF1 and TRF2, function as part of the 6 component shelterin complex. TRF2 binds DNA and recruits RAP1 (via binding to the RAP1 protein c-terminal (RCT)) and TIN2 in the protection of telomeres from DNA repair machinery. Metazoan shelterin consists of 3 DNA binding proteins (TRF2, TRF1, and POT1) and 3 recruited proteins that bind to one or more of these DNA-binding proteins (RAP1, TIN2, TPP1). Schizosaccharomyces pombe TAZ1 is an orthlog and binds RAP1. Human TRF1 and TRF2 bind double-stranded DNA. hTRF2 consists of a basic N-terminus, a TRF homology domain, the RAP1 binding motif (RBM), the TIN2 binding motif (TBM) and a myb-like DNA binding domain, SANT, named after 'SWI3, ADA2, N-CoR and TFIIIB', several factors that share this domain. Tandem copies of the domain bind telomeric DNA tandem repeats as part of the capping complex. The single myb-like domain of TRF-type proteins is similar to the tandem myb_like domains found in yeast RAP1.


Pssm-ID: 212558 [Multi-domain]  Cd Length: 50  Bit Score: 66.44  E-value: 4.64e-14
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|
gi 79340059 201 KRWSAEEDEELFAAVKRCGEGNWAHIVKGDFR-GERTASQLSQRWALIRK 249
Cdd:cd11660   1 RKWTDEEDEALVEGVEKYGVGNWAKILKDYFFvNNRTSVDLKDKWRNLKK 50
SANT smart00717
SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;
200-244 6.93e-10

SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;


Pssm-ID: 197842 [Multi-domain]  Cd Length: 49  Bit Score: 54.54  E-value: 6.93e-10
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*
gi 79340059    200 RKRWSAEEDEELFAAVKRCGEGNWAHIVKGDfrGERTASQLSQRW 244
Cdd:smart00717   1 KGEWTEEEDELLIELVKKYGKNNWEKIAKEL--PGRTAEQCRERW 43
Myb_DNA-binding pfam00249
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 200-244 5.71e-06

Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, as well as the SANT domain family.


Pssm-ID: 459731 [Multi-domain]  Cd Length: 46  Bit Score: 43.65  E-value: 5.71e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 79340059   200 RKRWSAEEDEELFAAVKRCGeGNWAHIvkGDFRGERTASQLSQRW 244
Cdd:pfam00249   1 RGPWTPEEDELLLEAVEKLG-NRWKKI--AKLLPGRTDNQCKNRW 42
 
Name Accession Description Interval E-value
SANT_TRF cd11660
Telomere repeat binding factor-like DNA-binding domains of the SANT/myb-like family; Human ...
 201-249 4.64e-14

Telomere repeat binding factor-like DNA-binding domains of the SANT/myb-like family; Human telomere repeat binding factors, TRF1 and TRF2, function as part of the 6 component shelterin complex. TRF2 binds DNA and recruits RAP1 (via binding to the RAP1 protein c-terminal (RCT)) and TIN2 in the protection of telomeres from DNA repair machinery. Metazoan shelterin consists of 3 DNA binding proteins (TRF2, TRF1, and POT1) and 3 recruited proteins that bind to one or more of these DNA-binding proteins (RAP1, TIN2, TPP1). Schizosaccharomyces pombe TAZ1 is an orthlog and binds RAP1. Human TRF1 and TRF2 bind double-stranded DNA. hTRF2 consists of a basic N-terminus, a TRF homology domain, the RAP1 binding motif (RBM), the TIN2 binding motif (TBM) and a myb-like DNA binding domain, SANT, named after 'SWI3, ADA2, N-CoR and TFIIIB', several factors that share this domain. Tandem copies of the domain bind telomeric DNA tandem repeats as part of the capping complex. The single myb-like domain of TRF-type proteins is similar to the tandem myb_like domains found in yeast RAP1.


Pssm-ID: 212558 [Multi-domain]  Cd Length: 50  Bit Score: 66.44  E-value: 4.64e-14
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|
gi 79340059 201 KRWSAEEDEELFAAVKRCGEGNWAHIVKGDFR-GERTASQLSQRWALIRK 249
Cdd:cd11660   1 RKWTDEEDEALVEGVEKYGVGNWAKILKDYFFvNNRTSVDLKDKWRNLKK 50
SANT smart00717
SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;
200-244 6.93e-10

SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains;


Pssm-ID: 197842 [Multi-domain]  Cd Length: 49  Bit Score: 54.54  E-value: 6.93e-10
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*
gi 79340059    200 RKRWSAEEDEELFAAVKRCGEGNWAHIVKGDfrGERTASQLSQRW 244
Cdd:smart00717   1 KGEWTEEEDELLIELVKKYGKNNWEKIAKEL--PGRTAEQCRERW 43
SANT cd00167
'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric ...
 202-244 5.04e-09

'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.


Pssm-ID: 238096 [Multi-domain]  Cd Length: 45  Bit Score: 52.19  E-value: 5.04e-09
                        10        20        30        40
                ....*....|....*....|....*....|....*....|...
gi 79340059 202 RWSAEEDEELFAAVKRCGEGNWAHIVKgdFRGERTASQLSQRW 244
Cdd:cd00167   1 PWTEEEDELLLEAVKKYGKNNWEKIAK--ELPGRTPKQCRERW 41
Myb_DNA-binding pfam00249
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 200-244 5.71e-06

Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, as well as the SANT domain family.


Pssm-ID: 459731 [Multi-domain]  Cd Length: 46  Bit Score: 43.65  E-value: 5.71e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 79340059   200 RKRWSAEEDEELFAAVKRCGeGNWAHIvkGDFRGERTASQLSQRW 244
Cdd:pfam00249   1 RGPWTPEEDELLLEAVEKLG-NRWKKI--AKLLPGRTDNQCKNRW 42
Myb_DNA-bind_6 pfam13921
Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, ...
 203-244 1.16e-05

Myb-like DNA-binding domain; This family contains the DNA binding domains from Myb proteins, as well as the SANT domain family.


Pssm-ID: 372817 [Multi-domain]  Cd Length: 60  Bit Score: 43.07  E-value: 1.16e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 79340059   203 WSAEEDEELFAAVKRCGeGNWAHIVKgdFRGERTASQLSQRW 244
Cdd:pfam13921   1 WTEEEDEKLLKLVEKYG-NDWKQIAK--ELGRRTPKQCFDRW 39
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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